Department of Computer Science and Engineering, University of Connecticut, Storrs, CT, USA.
Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, MA, USA.
Bioinformatics. 2018 Sep 15;34(18):3214-3216. doi: 10.1093/bioinformatics/bty314.
RANGER-DTL 2.0 is a software program for inferring gene family evolution using Duplication-Transfer-Loss reconciliation. This new software is highly scalable and easy to use, and offers many new features not currently available in any other reconciliation program. RANGER-DTL 2.0 has a particular focus on reconciliation accuracy and can account for many sources of reconciliation uncertainty including uncertain gene tree rooting, gene tree topological uncertainty, multiple optimal reconciliations and alternative event cost assignments. RANGER-DTL 2.0 is open-source and written in C++ and Python.
Pre-compiled executables, source code (open-source under GNU GPL) and a detailed manual are freely available from http://compbio.engr.uconn.edu/software/RANGER-DTL/.
Supplementary data are available at Bioinformatics online.
RANGER-DTL 2.0 是一款使用复制-转移-丢失(Duplication-Transfer-Loss)调和来推断基因家族进化的软件程序。这个新软件具有高度的可扩展性和易用性,并提供了许多其他调和程序目前没有的新功能。RANGER-DTL 2.0 特别注重调和准确性,可以考虑许多调和不确定性的来源,包括不确定的基因树根、基因树拓扑不确定性、多个最优调和以及替代事件成本分配。RANGER-DTL 2.0 是开源的,用 C++ 和 Python 编写。
预编译的可执行文件、源代码(根据 GNU GPL 开源)和详细的手册可从 http://compbio.engr.uconn.edu/software/RANGER-DTL/ 免费获得。
补充数据可在 Bioinformatics 在线获得。